If more than 50 genes/sequences are provided as input, then the associated running time can take some time. Therefore it is advisable to provide an email-address in case you are running the Interactive Phylogenetics Module with more than 50 genes. After processing you will be send an email with a link to the created phylogenetic tree.
The selection modi are exclusive: please choose either Gene selection or Species selection.
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":"";
$selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":"";
$num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''
include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ), 'gf_id' => 'HOM05D001019', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001019' ), 'data_identifier' => 'HOM05D001019', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001019', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '595', 'num_species' => '95' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p18600' => 'bna', 'A01p29860' => 'bna', 'A03p57280' => 'bna', 'A05p33940' => 'bna', 'A06p01420' => 'bna', 'A06p08390' => 'bna', 'A07p34670' => 'bna', 'A08p01900' => 'bna', 'Aa31LG10G2170' => 'aar', 'Aa31LG1G1530' => 'aar', 'Aa31LG2G6420' => 'aar', 'Aa31LG2G9530' => 'aar', 'Aa31LG4G11920' => 'aar', 'Aa31LG5G10090' => 'aar', 'Aa31LG8G2710' => 'aar', 'Actinidia01904' => 'ach', 'Actinidia05607' => 'ach', 'Actinidia07574' => 'ach', 'Actinidia09987' => 'ach', 'Actinidia14890' => 'ach', 'Actinidia16026' => 'ach', 'Actinidia16652' => 'ach', 'Actinidia18757' => 'ach', 'Actinidia31026' => 'ach', 'Actinidia35265' => 'ach', 'Actinidia38365' => 'ach', 'Actinidia39447' => 'ach', 'Ah.02g127940' => 'amhyb', 'Ah.03g137630' => 'amhyb', 'Ah.03g138380' => 'amhyb', 'AL1G25120' => 'aly', 'AL1G61240' => 'aly', 'AL2G15370' => 'aly', 'AL2G27060' => 'aly', 'AL3G28040' => 'aly', 'AL7G25340' => 'aly', 'Aqoxy1G02581' => 'aox', 'Aqoxy3G00207' => 'aox', 'Aqoxy3G00298' => 'aox', 'Aqoxy4G01199' => 'aox', 'arahy.Tifrunner.gnm1.ann1.03J9E3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C6TN6F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DAR9EC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HEF3AB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I0GXAU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NQB5D8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P01C8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QDKY8B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R2LEPT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T44QZ0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T8DZQ2' => 'arhy', 'AT1G13380' => 'ath', 'AT1G52910' => 'ath', 'AT1G61065' => 'ath', 'AT1G68220' => 'ath', 'AT3G15480' => 'ath', 'AT4G27435' => 'ath', 'ATR0680G258' => 'atr', 'ATR0807G059' => 'atr', 'ATR1125G104' => 'atr', 'Atru.chr10.1954' => 'acertr', 'Atru.chr11.220' => 'acertr', 'Atru.chr11.72' => 'acertr', 'Atru.chr12.2309' => 'acertr', 'Atru.chr2.2749' => 'acertr', 'AUR62002816' => 'cqu', 'AUR62002863' => 'cqu', 'AUR62014779' => 'cqu', 'AUR62016966' => 'cqu', 'AUR62029349' => 'cqu', 'AUR62029350' => 'cqu', 'AUR62034226' => 'cqu', 'AUR62034227' => 'cqu', 'AUR62035219' => 'cqu', 'AUR62037273' => 'cqu', 'BcaB03g15111' => 'bca', 'BcaB04g17134' => 'bca', 'BcaB06g27158' => 'bca', 'BcaB06g29581' => 'bca', 'BcaB06g29582' => 'bca', 'BcaB07g30334' => 'bca', 'BcaB07g32490' => 'bca', 'BcaB07g33374' => 'bca', 'BcaB08g34794' => 'bca', 'BcaB08g35228' => 'bca', 'BcaC01g01344' => 'bca', 'BcaC02g10592' => 'bca', 'BcaC05g25050' => 'bca', 'BcaC05g28975' => 'bca', 'BcaC06g31831' => 'bca', 'BcaC06g32691' => 'bca', 'BcaC08g43475' => 'bca', 'BcaC08g46252' => 'bca', 'BcaNung03027' => 'bca', 'BolC1t03735H' => 'bol', 'BolC3t21412H' => 'bol', 'BolC5t33855H' => 'bol', 'BolC6t35940H' => 'bol', 'BolC6t39250H' => 'bol', 'BolC8t52137H' => 'bol', 'BraA01t01810Z' => 'bra', 'BraA01t03114Z' => 'bra', 'BraA03t14794Z' => 'bra', 'BraA05t22216Z' => 'bra', 'BraA06t23364Z' => 'bra', 'BraA08t32242Z' => 'bra', 'BraA09t41595Z' => 'bra', 'C01p23620' => 'bna', 'C01p37710' => 'bna', 'C03p90920' => 'bna', 'C04p25560' => 'bna', 'C05p51690' => 'bna', 'C06p08610' => 'bna', 'C06p41780' => 'bna', 'C07p55480' => 'bna', 'C08p45850' => 'bna', 'CAN.G1211.1' => 'can', 'CAN.G162.78' => 'can', 'CAN.G1627.23' => 'can', 'CAN.G610.27' => 'can', 'CAN.G610.83' => 'can', 'CANSAT01G2077' => 'cansat', 'CANSAT01G2233' => 'cansat', 'CANSAT35G1800' => 'cansat', 'CANSAT56G4129' => 'cansat', 'CARHR013750' => 'chi', 'CARHR043140' => 'chi', 'CARHR052190' => 'chi', 'CARHR060910' => 'chi', 'CARHR235110' => 'chi', 'Carub.0001s1309' => 'cru', 'Carub.0001s4206' => 'cru', 'Carub.0002s0414' => 'cru', 'Carub.0002s1471' => 'cru', 'Carub.0003s1520' => 'cru', 'Carub.0005s0376' => 'cru', 'Carub.0007s1342' => 'cru', 'Ca_01825_v3' => 'car', 'Ca_06886_v3' => 'car', 'Ca_18518_v3' => 'car', 'Ca_26869_v3' => 'car', 'Cc02_g12880' => 'ccan', 'Cc05_g12390' => 'ccan', 'Cc11_g09710' => 'ccan', 'Cc11_g10130' => 'ccan', 'CDE01G0227' => 'cde', 'CDE02G1416' => 'cde', 'CDE02G2116' => 'cde', 'CDE02G2868' => 'cde', 'CDE02G4777' => 'cde', 'CDE04G0537' => 'cde', 'CDE06G1758' => 'cde', 'CDE08G1441' => 'cde', 'Cfa000405' => 'cfa', 'Cfa015841' => 'cfa', 'Cfa020543' => 'cfa', 'Ciclev10009639m.g' => 'ccl', 'Ciclev10016788m.g' => 'ccl', 'Ciclev10016804m.g' => 'ccl', 'Ciclev10016887m.g' => 'ccl', 'CiPaw.05G241400' => 'cil', 'CiPaw.09G055000' => 'cil', 'CiPaw.10G045700' => 'cil', 'CiPaw.11G173600' => 'cil', 'CiPaw.12G121100' => 'cil', 'CiPaw.15G085300' => 'cil', 'CiPaw.16G065100' => 'cil', 'ClCG01G005890' => 'cla', 'ClCG03G005850' => 'cla', 'ClCG03G009550' => 'cla', 'ClCG05G022500' => 'cla', 'ClCG10G006800' => 'cla', 'ClCG11G018240' => 'cla', 'COL.COLO4_09440' => 'col', 'COL.COLO4_16228' => 'col', 'COL.COLO4_31516' => 'col', 'COL.COLO4_32150' => 'col', 'Cpa.g.sc1.39' => 'cpa', 'Cpa.g.sc65.64' => 'cpa', 'Cpa.g.sc80.27' => 'cpa', 'CsaV3_1G012080' => 'csa', 'CsaV3_3G006180' => 'csa', 'CsaV3_4G033900' => 'csa', 'CsaV3_5G023140' => 'csa', 'CsaV3_5G028800' => 'csa', 'CsaV3_5G034580' => 'csa', 'CSS0009072' => 'camsi', 'CSS0013952' => 'camsi', 'CSS0019075' => 'camsi', 'CSS0023280' => 'camsi', 'CSS0033387' => 'camsi', 'CSS0046551' => 'camsi', 'CSS0047398' => 'camsi', 'DCAR_007245' => 'dca', 'DCAR_019541' => 'dca', 'DCAR_020979' => 'dca', 'DCAR_020980' => 'dca', 'DCAR_026748' => 'dca', 'DCAR_028115' => 'dca', 'Dinv04326' => 'din', 'Dinv04653' => 'din', 'Dinv07526' => 'din', 'Dinv16130' => 'din', 'Dinv21084' => 'din', 'Dinv22380' => 'din', 'Dinv31599' => 'din', 'Duzib170G0802' => 'dzi', 'Duzib213G0480' => 'dzi', 'Duzib248G0312' => 'dzi', 'Duzib268G0275' => 'dzi', 'Duzib268G0469' => 'dzi', 'ECA234G3763' => 'eca', 'ECA246G5013' => 'eca', 'ECA246G5195' => 'eca', 'EL10Ac4g08110' => 'bvu', 'EL10Ac6g14314' => 'bvu', 'EL10Ac6g14397' => 'bvu', 'EL10Ac8g20330' => 'bvu', 'Eucgr.B02851' => 'egr', 'Eucgr.D00653' => 'egr', 'Eucgr.F03338' => 'egr', 'Eucgr.G02320' => 'egr', 'FAN07G0280' => 'fan', 'FAN07G2728' => 'fan', 'FAN11G0691' => 'fan', 'FAN11G0924' => 'fan', 'FAN12G0968' => 'fan', 'FAN12G1151' => 'fan', 'FAN12G3794' => 'fan', 'FAN12G4061' => 'fan', 'FAN16G0853' => 'fan', 'FAN16G3460' => 'fan', 'FAN17G2768' => 'fan', 'FAN21G0729' => 'fan', 'FAN21G3101' => 'fan', 'FAN22G1837' => 'fan', 'FAN25G2475' => 'fan', 'FAN25G2851' => 'fan', 'FvH4_3g04720' => 'fve', 'FvH4_3g20620' => 'fve', 'FvH4_4g26760' => 'fve', 'FvH4_4g27350' => 'fve', 'Glyma.01G080900' => 'gma', 'Glyma.06G247702' => 'gma', 'Glyma.06G247752' => 'gma', 'Glyma.07G193800' => 'gma', 'Glyma.08G261800' => 'gma', 'Glyma.10G271000' => 'gma', 'Glyma.12G222000' => 'gma', 'Glyma.13G182800' => 'gma', 'Glyma.13G279500' => 'gma', 'Glyma.15G254200' => 'gma', 'Glyma.17G235366' => 'gma', 'Glyma.17G235432' => 'gma', 'Gohir.A01G066200' => 'ghi', 'Gohir.A03G146900' => 'ghi', 'Gohir.A03G148800' => 'ghi', 'Gohir.A04G024600' => 'ghi', 'Gohir.A05G162300' => 'ghi', 'Gohir.A05G314200' => 'ghi', 'Gohir.A10G023500' => 'ghi', 'Gohir.D01G053500' => 'ghi', 'Gohir.D02G170000' => 'ghi', 'Gohir.D02G171800' => 'ghi', 'Gohir.D05G165100' => 'ghi', 'Gohir.D05G359300' => 'ghi', 'Gohir.D10G024300' => 'ghi', 'Gorai.002G073300' => 'gra', 'Gorai.005G190500' => 'gra', 'Gorai.005G193300' => 'gra', 'Gorai.009G170300' => 'gra', 'Gorai.009G433800' => 'gra', 'Gorai.011G025500' => 'gra', 'GSVIVG01002243001' => 'vvi', 'GSVIVG01011846001' => 'vvi', 'GSVIVG01011894001' => 'vvi', 'GSVIVG01014391001' => 'vvi', 'HanXRQChr08g0213441' => 'han', 'HanXRQChr08g0234531' => 'han', 'HanXRQChr14g0459151' => 'han', 'HanXRQChr15g0476291' => 'han', 'HanXRQChr16g0518231' => 'han', 'HanXRQChr17g0552081' => 'han', 'HanXRQChr17g0562671' => 'han', 'Haze_00649' => 'cav', 'Haze_06357' => 'cav', 'Haze_06523' => 'cav', 'Haze_09481' => 'cav', 'Haze_09485' => 'cav', 'Haze_17484' => 'cav', 'Hma1.2p1_0061F.1_g033880' => 'hma', 'Hma1.2p1_0191F.1_g083130' => 'hma', 'Hma1.2p1_0600F.1_g187110' => 'hma', 'Hma1.2p1_1024F.1_g249110' => 'hma', 'HPP92_003344' => 'vpl', 'HPP92_021859' => 'vpl', 'HPP92_023814' => 'vpl', 'Hund18644' => 'sun', 'Hund20747' => 'sun', 'Hund21216' => 'sun', 'Hund21251' => 'sun', 'Hund23688' => 'sun', 'Hund25062' => 'sun', 'Lalb_Chr01g0016931' => 'lal', 'Lalb_Chr02g0145761' => 'lal', 'Lalb_Chr02g0145971' => 'lal', 'Lalb_Chr06g0165851' => 'lal', 'Lalb_Chr06g0166061' => 'lal', 'Lalb_Chr16g0383511' => 'lal', 'Lalb_Chr16g0383521' => 'lal', 'Lalb_Chr20g0109881' => 'lal', 'Lj1A848T62' => 'lonja', 'Lj2A285G54' => 'lonja', 'Lj2g0023009' => 'lja', 'Lj3A1014T44' => 'lonja', 'Lj3A880T118' => 'lonja', 'Lj3g0001516' => 'lja', 'Lj4g0009302' => 'lja', 'Lj5g0000756' => 'lja', 'Lj8A158T82' => 'lonja', 'Lsat_1_v5_gn_3_59180' => 'lsa', 'Lsat_1_v5_gn_4_54460' => 'lsa', 'Lsat_1_v5_gn_5_6540' => 'lsa', 'Lsat_1_v5_gn_8_41380' => 'lsa', 'Manes.03G113500' => 'mes', 'Manes.06G065200' => 'mes', 'Manes.06G068300' => 'mes', 'Manes.14G102700' => 'mes', 'Manes.15G085100' => 'mes', 'Manes.15G085200' => 'mes', 'Manes.16G024400' => 'mes', 'Manes.17G042633' => 'mes', 'Mapoly0013s0138' => 'mpo', 'Mapoly0030s0127' => 'mpo', 'MBI16_g24192_MAGBIO' => 'mbi', 'MBI16_g33276_MAGBIO' => 'mbi', 'MBI16_g42427_MAGBIO' => 'mbi', 'MBI16_g44835_MAGBIO' => 'mbi', 'MBI17_g19524_MAGBIO' => 'mbi', 'MBI18_g17025_MAGBIO' => 'mbi', 'MD01G1086300' => 'mdo', 'MD03G1223600' => 'mdo', 'MD06G1233200' => 'mdo', 'MD10G1298000' => 'mdo', 'MD11G1172000' => 'mdo', 'MD11G1172100' => 'mdo', 'MD11G1241500' => 'mdo', 'MD13G1035500' => 'mdo', 'MD13G1042100' => 'mdo', 'MD15G1416200' => 'mdo', 'MD16G1037500' => 'mdo', 'MD16G1042800' => 'mdo', 'MD16G1286700' => 'mdo', 'Medtr1g109660' => 'mtr', 'Medtr1g109690' => 'mtr', 'Medtr1g109700' => 'mtr', 'Medtr2g079830' => 'mtr', 'Medtr4g089100' => 'mtr', 'Medtr5g057335' => 'mtr', 'Medtr5g057670' => 'mtr', 'Medtr7g114270' => 'mtr', 'MELO3C002581.2' => 'cme', 'MELO3C003027.2' => 'cme', 'MELO3C005341.2' => 'cme', 'MELO3C012273.2' => 'cme', 'MELO3C016525.2' => 'cme', 'MELO3C016716.2' => 'cme', 'Migut.E00366' => 'egut', 'Migut.H01504' => 'egut', 'Migut.H01920' => 'egut', 'Migut.M00860' => 'egut', 'Migut.N02023' => 'egut', 'MSTRG.13533' => 'ama', 'MSTRG.14368' => 'ama', 'MSTRG.14687' => 'ama', 'MSTRG.2218' => 'ama', 'MSTRG.7643' => 'ama', 'Nitab4.5_0000662g0130' => 'nta', 'Nitab4.5_0000694g0150' => 'nta', 'Nitab4.5_0000791g0100' => 'nta', 'Nitab4.5_0002112g0050' => 'nta', 'Nitab4.5_0003063g0020' => 'nta', 'Nitab4.5_0003373g0050' => 'nta', 'Nitab4.5_0003868g0020' => 'nta', 'Nitab4.5_0009488g0010' => 'nta', 'Nitab4.5_0011020g0010' => 'nta', 'Nitab4.5_0012117g0020' => 'nta', 'Nn1g03999' => 'nnu', 'Nn1g06635' => 'nnu', 'Nn1g09164' => 'nnu', 'Nn3g17845' => 'nnu', 'Nn4g23838' => 'nnu', 'Nn4g23946' => 'nnu', 'Oeu008018.1' => 'oeu', 'Oeu014295.1' => 'oeu', 'Oeu039288.1' => 'oeu', 'Oeu049441.1' => 'oeu', 'Oeu049447.1' => 'oeu', 'Oeu053952.1' => 'oeu', 'Oeu060542.1' => 'oeu', 'Os04g0678200' => 'osa', 'Os07g0462200' => 'osa', 'Os08g0261100' => 'osa', 'Os09g0281300' => 'osa', 'Os10g0495900' => 'osa', 'Peaxi162Scf00000g45003' => 'pax', 'Peaxi162Scf00179g00526' => 'pax', 'Peaxi162Scf00179g00527' => 'pax', 'Peaxi162Scf00382g00712' => 'pax', 'Peaxi162Scf00524g00087' => 'pax', 'Peaxi162Scf00998g00025' => 'pax', 'PGR004G2399' => 'pgr', 'PGR031G0816' => 'pgr', 'PGR083G1865' => 'pgr', 'PGR102G0745' => 'pgr', 'PGR102G1549' => 'pgr', 'PGSC0003DMG400012457' => 'stu', 'PGSC0003DMG400014546' => 'stu', 'PGSC0003DMG400022376' => 'stu', 'PGSC0003DMG400030574' => 'stu', 'PGSC0003DMG401015311' => 'stu', 'PGSC0003DMG402015315' => 'stu', 'Phvul.002G226000' => 'pvu', 'Phvul.003G035600' => 'pvu', 'Phvul.005G083900' => 'pvu', 'Phvul.007G031500' => 'pvu', 'Potri.001G403500' => 'ptr', 'Potri.001G403600' => 'ptr', 'Potri.004G038700' => 'ptr', 'Potri.008G120900' => 'ptr', 'Potri.008G124100' => 'ptr', 'Potri.010G120500' => 'ptr', 'Potri.010G124800' => 'ptr', 'Potri.011G122700' => 'ptr', 'Pp3c11_3330' => 'ppa', 'Pp3c13_15640' => 'ppa', 'Pp3c13_21880' => 'ppa', 'Pp3c16_3170' => 'ppa', 'Pp3c24_2380' => 'ppa', 'Pp3c26_8150' => 'ppa', 'Pp3c27_3440' => 'ppa', 'Pp3c3_13080' => 'ppa', 'Pp3c4_8670' => 'ppa', 'Pp3c5_3140' => 'ppa', 'Pp3c6_25620' => 'ppa', 'Prupe.1G311300' => 'ppe', 'Prupe.1G316300' => 'ppe', 'Prupe.4G042400' => 'ppe', 'Prupe.4G185900' => 'ppe', 'Psat0s1379g0280' => 'psa', 'Psat0s2522g0040' => 'psa', 'Psat5g245680' => 'psa', 'Psat7g112040' => 'psa', 'PSO017G2088' => 'pso', 'PSO017G4860' => 'pso', 'PSO170G5409' => 'pso', 'PSO210G6685' => 'pso', 'PSO648G0071' => 'pso', 'PSO832G3797' => 'pso', 'QL01p010850' => 'qlo', 'QL01p042374' => 'qlo', 'QL01p042377' => 'qlo', 'QL05p039157' => 'qlo', 'QL08p019624' => 'qlo', 'QL08p038161' => 'qlo', 'RcHm_v2.0_Chr2g0089361' => 'rch', 'RcHm_v2.0_Chr4g0434441' => 'rch', 'RcHm_v2.0_Chr4g0435161' => 'rch', 'RcHm_v2.0_Chr5g0007741' => 'rch', 'RcHm_v2.0_Chr5g0034641' => 'rch', 'Rhsim04G0019400' => 'rsi', 'Rhsim06G0028300' => 'rsi', 'Rhsim06G0196000' => 'rsi', 'Rhsim09G0108000' => 'rsi', 'Rhsim12G0086100' => 'rsi', 'RhsimUnG0043600' => 'rsi', 'Sabra04G0023700' => 'sbr', 'Sabra08G0091600' => 'sbr', 'Sabra08G0093900' => 'sbr', 'Sabra10G0090500' => 'sbr', 'Sabra10G0094700' => 'sbr', 'Sabra11G0108300' => 'sbr', 'Sabra16G0265100' => 'sbr', 'Sabra16G0265200' => 'sbr', 'SalBow7G1963' => 'sbo', 'SalBow7G3457' => 'sbo', 'SalBow7G4857' => 'sbo', 'SalBow8G3908' => 'sbo', 'Sc03g0009740' => 'sci', 'Sc03g0009750' => 'sci', 'Sc03g0009810' => 'sci', 'Sc03g0009820' => 'sci', 'Sc04g0006080' => 'sci', 'Sc11g0003430' => 'sci', 'Sc16g0006900' => 'sci', 'Sc17g0006340' => 'sci', 'Sed0006632' => 'sed', 'Sed0006898' => 'sed', 'Sed0008835' => 'sed', 'Sed0010451' => 'sed', 'Sed0020371' => 'sed', 'Sed0023434' => 'sed', 'Sed0024558' => 'sed', 'SEGI_07655' => 'sgi', 'SEGI_25352' => 'sgi', 'SEGI_26977' => 'sgi', 'SGA_v2.0_scaffold14G06866' => 'sas', 'SGA_v2.0_scaffold14G06892' => 'sas', 'SGA_v2.0_scaffold170G38793' => 'sas', 'SGA_v2.0_scaffold73G24297' => 'sas', 'SGA_v2.0_scaffold9G04941' => 'sas', 'SHI15993' => 'shi', 'SMO141G0117' => 'smo', 'SMO164G0182' => 'smo', 'SMO196G0159' => 'smo', 'SMO347G0447' => 'smo', 'Solyc02g078630.2' => 'sly', 'Solyc05g008900.4' => 'sly', 'Solyc05g009330.3' => 'sly', 'Solyc07g063340.3' => 'sly', 'Solyc12g013650.2' => 'sly', 'Sopen02g023490' => 'spe', 'Sopen05g004660' => 'spe', 'Sopen05g005090' => 'spe', 'Sopen07g031510' => 'spe', 'Sopen12g007000' => 'spe', 'Sp1g11870' => 'spa', 'Sp1g39480' => 'spa', 'Sp2g03460' => 'spa', 'Sp3g13730' => 'spa', 'Sp5g23240' => 'spa', 'Sp7g25380' => 'spa', 'TAR574G0001' => 'tar', 'TAR622G0459' => 'tar', 'TAR624G0937' => 'tar', 'TAR626G0372' => 'tar', 'TAR627G0469' => 'tar', 'TAR629G2839' => 'tar', 'THA.LOC104808141' => 'tha', 'THA.LOC104809568' => 'tha', 'THA.LOC104810486' => 'tha', 'THA.LOC104811856' => 'tha', 'THA.LOC104815547' => 'tha', 'THA.LOC104824030' => 'tha', 'Thecc.02G222800' => 'tca', 'Thecc.02G230700' => 'tca', 'Thecc.06G192100' => 'tca', 'Thecc.07G076500' => 'tca', 'Thhalv10008860m.g' => 'esa', 'Thhalv10011821m.g' => 'esa', 'Thhalv10019159m.g' => 'esa', 'Thhalv10021635m.g' => 'esa', 'Thhalv10023717m.g' => 'esa', 'Thhalv10026392m.g' => 'esa', 'TPR.G12073' => 'tpr', 'TPR.G15592' => 'tpr', 'TPR.G22972' => 'tpr', 'TPR.G34456' => 'tpr', 'TPR.G36293' => 'tpr', 'TPR.G38974' => 'tpr', 'TPR.G4501' => 'tpr', 'TPR.G4882' => 'tpr', 'TWI31G0267' => 'twi', 'TWI38G0230' => 'twi', 'TWI38G0704' => 'twi', 'TWI38G1397' => 'twi', 'TWI38G1674' => 'twi', 'TWI38G2161' => 'twi', 'TWI63G1399' => 'twi', 'TWI75G0840' => 'twi', 'TWI75G1231' => 'twi', 'TWI79G0338' => 'twi', 'unitig_21.g20073' => 'ugi', 'unitig_22.g5572' => 'ugi', 'unitig_26.g9368' => 'ugi', 'unitig_62.g23724' => 'ugi', 'unitig_699.g19221' => 'ugi', 'unitig_8.g3357' => 'ugi', 'vmacro01399' => 'vma', 'vmacro01400' => 'vma', 'vmacro03842' => 'vma', 'vmacro09545' => 'vma', 'vmacro10558' => 'vma', 'vmacro11834' => 'vma', 'VMungo0251G0695' => 'vmu', 'VMungo0720G0863' => 'vmu', 'VMungo1080G1334' => 'vmu', 'Zm00001eb044700' => 'zma', 'Zm00001eb066130' => 'zma', 'Zm00001eb096510' => 'zma', 'Zm00001eb178030' => 'zma', 'Zm00001eb281580' => 'zma', 'Zm00001eb306650' => 'zma', 'Zm00001eb411880' => 'zma', 'Zm00001eb433800' => 'zma' ) $gf_id = 'HOM05D001019' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001019' ) $data_identifier = 'HOM05D001019' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 7, 'ach' => (int) 12, 'amhyb' => (int) 3, 'aly' => (int) 6, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 6, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 10, 'bca' => (int) 19, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 7, 'car' => (int) 4, 'ccan' => (int) 4, 'cde' => (int) 8, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 6, 'col' => (int) 4, 'cpa' => (int) 3, 'csa' => (int) 6, 'camsi' => (int) 7, 'dca' => (int) 6, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 3, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 13, 'gra' => (int) 6, 'vvi' => (int) 4, 'han' => (int) 7, 'cav' => (int) 6, 'hma' => (int) 4, 'vpl' => (int) 3, 'sun' => (int) 6, 'lal' => (int) 8, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 8, 'mpo' => (int) 2, 'mbi' => (int) 6, 'mdo' => (int) 13, 'mtr' => (int) 8, 'cme' => (int) 6, 'egut' => (int) 5, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 5, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 11, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 6, 'rch' => (int) 5, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 4, 'sci' => (int) 8, 'sed' => (int) 7, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 6, 'tpr' => (int) 8, 'twi' => (int) 10, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 3, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb433800' $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